BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524676.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 561,534 number of mapped reads = 516,879 (92.05%) number of supplementary alignments = 2,298 (0.41%) number of secondary alignments = 0 number of mapped bases = 30,496,117 bp number of sequenced bases = 30,486,831 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,351 duplication rate = 1.47% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6678 >>>>>>> ACTG content number of A's = 7,978,887 bp (26.17%) number of C's = 5,942,984 bp (19.49%) number of T's = 9,532,689 bp (31.27%) number of G's = 7,028,169 bp (23.05%) number of N's = 4,102 bp (0.01%) GC percentage = 42.55% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 154,457 number of insertions = 2,155 mapped reads with insertion percentage = 0.41% number of deletions = 5,905 mapped reads with deletion percentage = 1.13% homopolymer indels = 44.11% >>>>>>> Coverage mean coverageData = 0.0099X std coverageData = 0.1265X There is a 0.94% of reference with a coverageData >= 1X There is a 0.03% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 2442667 0.009800043788055397 0.19659428440702734 chr2 243199373 2618323 0.010766158513081363 0.15586279876338052 chr3 198022430 1970937 0.00995309975743657 0.10288913588890848 chr4 191154276 2002071 0.010473587313317543 0.11095869400875649 chr5 180915260 1841096 0.010176565536815414 0.10400951296761994 chr6 171115067 1767779 0.010330937134834538 0.11109977147474631 chr7 159138663 1721364 0.01081675544804596 0.1405323285921019 chr8 146364022 1566706 0.010704174281299814 0.14028604868147268 chr9 141213431 1292699 0.009154221314826632 0.1102187478902349 chr10 135534747 1482232 0.010936177126593227 0.13332802108735012 chr11 135006516 1386285 0.010268282162025424 0.11580042431939555 chr12 133851895 1329703 0.00993413653202295 0.10277669505872652 chr13 115169878 969734 0.00842003149469343 0.09541969415593869 chr14 107349540 923603 0.008603697789482842 0.09617169657550319 chr15 102531392 886105 0.008642280015080649 0.09570984850949543 chr16 90354753 882935 0.00977187110455606 0.10511967674345878 chr17 81195210 811484 0.00999423488158969 0.10688164780656169 chr18 78077248 809283 0.010365157849825855 0.16594153250298163 chr19 59128983 618249 0.010455938333997728 0.14944424416570795 chr20 63025520 637498 0.010114918528240624 0.10455243964364708 chr21 48129895 408885 0.008495447579929273 0.09875049634191237 chr22 51304566 353379 0.006887866471767834 0.08552871256744833 chrMT 16571 601 0.03626817934946593 0.2231546773657944 chrX 155270560 1673958 0.010780910431443025 0.1106383178508643 chrY 59373566 98541 0.001659677978580569 0.06735847470391314